RnoINT0145641 @ rn6
Intron Retention
Gene
ENSRNOG00000000994 | Stxbp2
Description
syntaxin binding protein 2 [Source:RGD Symbol;Acc:619967]
Coordinates
chr12:2189292-2189983:+
Coord C1 exon
chr12:2189292-2189387
Coord A exon
chr12:2189388-2189897
Coord C2 exon
chr12:2189898-2189983
Length
510 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAC
5' ss Score
5.99
3' ss Seq
CTCCTCCTGTCTGGCCACAGGAT
3' ss Score
10.48
Exon sequences
Seq C1 exon
GGCTCAGGGACCTCTAGCCGGCTGGAGCGGAGAGAACGCATGGAGCCCACCTACCAGCTGTCTCGCTGGTCCCCAGTCATCAAGGACGTGATGGAG
Seq A exon
GTACACAAGTTGGGTACCCCTGTTCCTCTCTACTGATCCCATTAGCCAGTAAGCCCTCCACCCCACCCGCCCAGGCTCTCAGTGGTAAGCCTTGGGGCTTAGTGGGAAATCCCTTATTATCAGCCTGGCACCCTATTTGCTTTACAGGGTGGGGCACACAAAACAGCACCCCAGGAATTGGGGCAGCAGAGGAATTCCTTGCTAGAGATCATAGCTTTCTCTATACCCTGTACTCTCCTCTAATCTCTATCCTGTCCTCCAGAAGCCTCTCTTATGCTGGCCCCTGGCCACCCCCACACCCTAAAGCCTCATAATCAAATAATGGTGTATCTTATCAGTTTGTGGAAATGTCCTGGTAACTCCTGCTTGGAGACCCAGCAACTTTATACTCTGACTTCCTGGATTGCTGGGTCCCCAAGAAACAAGGAGGTGTAGATTTGGGGACCACGGCCATTTCATTTGCTGGGCTCCACTGGCTGGGGCTCTTTAACTCCTCCTGTCTGGCCACAG
Seq C2 exon
GATGTGGTGGAGGACCGGCTAGACCGAAAGCTGTGGCCCTTCGTGTCTGACCCTGCCCCTGTGTCTAGCTCCCAAGCAGCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000994:ENSRNOT00000001322:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.375 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.6=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCAGGGACCTCTAGCC
R:
CTGACAGCTGCTTGGGAG
Band lengths:
182-692
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]